題 目: Estimate the Occurrence Rate of the DNA Palindromes
主講人: 杜憶萍 博士 (中研院統計所)
時 間: 100年4月1日（星期五）上午 10:40 - 11：30
（上午10：20- 10：40茶會於統計所821室舉行）
地 點: 清大綜合三館837室
Abstract
A DNA palindrome is a segment of double-stranded DNA sequence with inversion
symmetry which may form secondary structures conferring significant
biological functions ranging from RNA transcription to DNA replication. To
test if the clusters of DNA palindromes distribute randomly is an important
bioinformatic problem, where the occurrence rate of the DNA palindromes is a
key estimator for setting up a test. The most commonly used statistics for
estimating the occurrence rate for scan statistics is the average rate.
However, in our simulation, the average rate may double the null occurrence
rate of DNA palindromes due to hot spot regions of 3000 bp’s in a herpes
virus genome. Here, we propose a formula to estimate the occurrence rate
through an analytic derivation under a Markov assumption on DNA sequence. Our
simulation study shows that the performance of this method has improved the
accuracy and robustness against hot spots, as compared to the commonly used
average rate. In addition, we derived analytical formula for the
moment-generating functions of various statistics under a Markov model,
enabling further calculations of p-values.
This is a joint work with Yuan-Fu Huang and Shao-Hsuan Wang.
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※ 編輯: MoshiX2 來自: 140.113.56.42 (04/01 00:08)
※ 編輯: MoshiX2 來自: 140.113.56.42 (04/01 00:08)